Downstream differential gene expression analysis with DESeq2 package.
The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker containers making installation trivial and results highly reproducible.
The qbic-pipelines/rnadeseq pipeline comes with documentation about the pipeline, found in the docs/ directory:
- Installation
- Pipeline configuration
- Running the pipeline
- Output and how to interpret the results
- Troubleshooting
qbic-pipelines/rnadeseq was written by Gisela Gabernet (@ggabernet), Silvia Morini (@silviamorins) and Oskar Wacker (@WackerO), at QBiC. The DESeq2 scripts were originally written by @qbicStefanC.
The pipeline structure is based on the template by the nf-core project. For more information, please check out the nf-core website.
If you would like to contribute to this pipeline, please see the contributing guidelines.